Transcriptome analysis of shell color-related genes in the hard clam Mercenaria mercenaria

doi:10.1016/j.cbd.2019.100598

	Transcriptome analysis of shell color-related genes in the hard clam Mercenaria mercenaria
	Hu, Zhi 1,2,3; Song, Hao 1,2,4; Yang, Mei-jie 1,2,3; Yu, Zheng-lin 1,2,3; Zhou, Cong1,2,3 ; Wang, Xiao-long1,2 ; Zhang, Tao1,2,4
	2019-09-01
发表期刊	COMPARATIVE BIOCHEMISTRY AND PHYSIOLOGY D-GENOMICS & PROTEOMICS
ISSN	1744-117X
卷号	31 页码:9
通讯作者	Zhang, Tao([email protected])
摘要	The shell color of marine bivalves shows great diversity and is considered as an economic trait. In China, the hard clam, Mercenaria mercenaria, commonly has three shell colors in the wild: red, white, and mottled. The genetic mechanisms controlling color segregation are not fully understood. In this study, RNA-seq was performed to exploit the related shell color genes and determine the genetic basis of the different shell colors. Nine sequence libraries with those three shell colors of hard clam were constructed; 406,377 transcripts and 248,251 unigenes were obtained with N50 values of 1365 and 1682 base pairs, respectively. Cluster analysis identified 363, 392, and 220 genes exclusively highly expressed in red, white, and mottled clams, respectively. We further classified differentially expressed genes (DEGs), the genes involved in lipid binding and transport, signal transduction, ATP synthesis, and other processes in the red vs white comparison were found, which may participate in red shell formation. DEGs related to signal transduction, particularly G protein-coupled receptor activity, were found in the red vs mottled comparison, suggesting that these genes might be important in mottled shell formation. In the white vs mottled comparison, DEGs involved in zinc ion binding were found. Our results provide new insights into shell color formation mechanisms in molluscs. This information could be used in selective breeding and marker-assisted breeding of this economically important clam species.
关键词	Mercenaria mercenaria Shell color Transcriptome Differential expression genes Lipid binding and transport
DOI	10.1016/j.cbd.2019.100598
收录类别	SCI
语种	英语
资助项目	earmarked fund for the Modern Agro-industry Technology Research System[CARS-49]###3169; Natural Science Foundation of Shandong Province[ZR2019BD003]###3170; China Postdoctoral Science Foundation[2019M652498]###3171; Major Applied Technology Innovation Project in Agriculture of Shandong Province[SF1405303301]###3172; supporting program of Science and Technology Service Network Initiative in Fujian province: the selection breeding of the hard clam, large-scale seed cultivation and high efficiency ecological culture technology in pond###3173; industry leading talents project of Taishan scholars###158; Research and Demonstration on Key Technologies of Marine Green Culture Environment Monitoring and Ecological Restoration[2016ZDJS06A02]###2108; Creative Team Project of the Laboratory for Marine Ecology and Environmental Science, Qingdao Pilot National Laboratory for Marine Science and Technology[LMEES-CTSP-2018-1]###3174; Double Hundred' Blue Industry Leader Team of Yantai###3175; earmarked fund for the Modern Agro-industry Technology Research System[CARS-49]; Natural Science Foundation of Shandong Province[ZR2019BD003]; China Postdoctoral Science Foundation[2019M652498]; Major Applied Technology Innovation Project in Agriculture of Shandong Province[SF1405303301]; supporting program of Science and Technology Service Network Initiative in Fujian province: the selection breeding of the hard clam, large-scale seed cultivation and high efficiency ecological culture technology in pond; Industry Leading Talents Project of Taishan Scholars; Research and Demonstration on Key Technologies of Marine Green Culture Environment Monitoring and Ecological Restoration[2016ZDJS06A02]; Creative Team Project of the Laboratory for Marine Ecology and Environmental Science, Qingdao Pilot National Laboratory for Marine Science and Technology[LMEES-CTSP-2018-1]; Double Hundred' Blue Industry Leader Team of Yantai
WOS研究方向	Biochemistry & Molecular Biology ; Genetics & Heredity
WOS类目	Biochemistry & Molecular Biology ; Genetics & Heredity
WOS记录号	WOS:000482872400005
出版者	ELSEVIER SCIENCE INC
引用统计	被引频次：19[WOS] [WOS记录] [WOS相关记录]
文献类型	期刊论文
条目标识符	http://ir.qdio.ac.cn/handle/337002/162868
专题	海洋生态与环境科学重点实验室
通讯作者	Zhang, Tao
作者单位	1.Chinese Acad Sci, Inst Oceanol, CAS Key Lab Marine Ecol & Environm Sci, Qingdao 266071, Shandong, Peoples R China 2.Qingdao Natl Lab Marine Sci & Technol, Lab Marine Ecol & Environm Sci, Qingdao 266237, Shandong, Peoples R China 3.Univ Chinese Acad Sci, Beijing 100049, Peoples R China 4.Chinese Acad Sci, Ctr Ocean Mega Sci, Qingdao 266071, Shandong, Peoples R China
第一作者单位	中国科学院海洋研究所
通讯作者单位	中国科学院海洋研究所
推荐引用方式 GB/T 7714	Hu, Zhi,Song, Hao,Yang, Mei-jie,et al. Transcriptome analysis of shell color-related genes in the hard clam Mercenaria mercenaria[J]. COMPARATIVE BIOCHEMISTRY AND PHYSIOLOGY D-GENOMICS & PROTEOMICS,2019,31:9.
APA	Hu, Zhi.,Song, Hao.,Yang, Mei-jie.,Yu, Zheng-lin.,Zhou, Cong.,...&Zhang, Tao.(2019).Transcriptome analysis of shell color-related genes in the hard clam Mercenaria mercenaria.COMPARATIVE BIOCHEMISTRY AND PHYSIOLOGY D-GENOMICS & PROTEOMICS,31,9.
MLA	Hu, Zhi,et al."Transcriptome analysis of shell color-related genes in the hard clam Mercenaria mercenaria".COMPARATIVE BIOCHEMISTRY AND PHYSIOLOGY D-GENOMICS & PROTEOMICS 31(2019):9.

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文件名称/大小	文献类型	版本类型	开放类型	使用许可
1-s2.0-S1744117X1930（2222KB）	期刊论文	出版稿	限制开放	CC BY-NC-SA	浏览
Transcriptome analys（2222KB）	期刊论文	出版稿	限制开放	CC BY-NC-SA	浏览